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yeast_genome_resources

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The dataset generation failed because of a cast error

Error code:   DatasetGenerationCastError
Exception:    DatasetGenerationCastError
Message:      An error occurred while generating the dataset

All the data files must have the same columns, but at some point there are 7 new columns ({'ensembl', 'refseq', 'seqlength', 'igenomes', 'mitra', 'numbered', 'ucsc'}) and 8 missing columns ({'symbol', 'locus_tag', 'note', 'start', 'alias', 'strand', 'end', 'source'}).

This happened while the csv dataset builder was generating data using

/tmp/hf-datasets-cache/medium/datasets/50459983451204-config-parquet-and-info-BrentLab-yeast_genome_res-7d0b791c/hub/datasets--BrentLab--yeast_genome_resources/snapshots/15204a1f38339120ef69e50fcae3fcef705105ed/chrmap.csv.gz, [/tmp/hf-datasets-cache/medium/datasets/50459983451204-config-parquet-and-info-BrentLab-yeast_genome_res-7d0b791c/hub/datasets--BrentLab--yeast_genome_resources/snapshots/15204a1f38339120ef69e50fcae3fcef705105ed/brentlab_features.csv.gz (origin=hf://datasets/BrentLab/yeast_genome_resources@15204a1f38339120ef69e50fcae3fcef705105ed/brentlab_features.csv.gz), /tmp/hf-datasets-cache/medium/datasets/50459983451204-config-parquet-and-info-BrentLab-yeast_genome_res-7d0b791c/hub/datasets--BrentLab--yeast_genome_resources/snapshots/15204a1f38339120ef69e50fcae3fcef705105ed/chrmap.csv.gz (origin=hf://datasets/BrentLab/yeast_genome_resources@15204a1f38339120ef69e50fcae3fcef705105ed/chrmap.csv.gz), /tmp/hf-datasets-cache/medium/datasets/50459983451204-config-parquet-and-info-BrentLab-yeast_genome_res-7d0b791c/hub/datasets--BrentLab--yeast_genome_resources/snapshots/15204a1f38339120ef69e50fcae3fcef705105ed/intergenic_regions_metadata_5_1.csv (origin=hf://datasets/BrentLab/yeast_genome_resources@15204a1f38339120ef69e50fcae3fcef705105ed/intergenic_regions_metadata_5_1.csv), /tmp/hf-datasets-cache/medium/datasets/50459983451204-config-parquet-and-info-BrentLab-yeast_genome_res-7d0b791c/hub/datasets--BrentLab--yeast_genome_resources/snapshots/15204a1f38339120ef69e50fcae3fcef705105ed/mindel_promoters.csv.gz (origin=hf://datasets/BrentLab/yeast_genome_resources@15204a1f38339120ef69e50fcae3fcef705105ed/mindel_promoters.csv.gz)]

Please either edit the data files to have matching columns, or separate them into different configurations (see docs at https://hf.co/docs/hub/datasets-manual-configuration#multiple-configurations)
Traceback:    Traceback (most recent call last):
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 1887, in _prepare_split_single
                  writer.write_table(table)
                File "/usr/local/lib/python3.12/site-packages/datasets/arrow_writer.py", line 675, in write_table
                  pa_table = table_cast(pa_table, self._schema)
                             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/table.py", line 2272, in table_cast
                  return cast_table_to_schema(table, schema)
                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/table.py", line 2218, in cast_table_to_schema
                  raise CastError(
              datasets.table.CastError: Couldn't cast
              refseq: string
              igenomes: string
              ensembl: string
              ucsc: string
              mitra: string
              seqlength: int64
              numbered: string
              chr: string
              type: string
              -- schema metadata --
              pandas: '{"index_columns": [{"kind": "range", "name": null, "start": 0, "' + 1265
              to
              {'chr': Value('string'), 'start': Value('int64'), 'end': Value('int64'), 'strand': Value('string'), 'type': Value('string'), 'locus_tag': Value('string'), 'symbol': Value('string'), 'alias': Value('string'), 'source': Value('string'), 'note': Value('string')}
              because column names don't match
              
              During handling of the above exception, another exception occurred:
              
              Traceback (most recent call last):
                File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 1347, in compute_config_parquet_and_info_response
                  parquet_operations = convert_to_parquet(builder)
                                       ^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 980, in convert_to_parquet
                  builder.download_and_prepare(
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 884, in download_and_prepare
                  self._download_and_prepare(
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 947, in _download_and_prepare
                  self._prepare_split(split_generator, **prepare_split_kwargs)
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 1736, in _prepare_split
                  for job_id, done, content in self._prepare_split_single(
                                               ^^^^^^^^^^^^^^^^^^^^^^^^^^^
                File "/usr/local/lib/python3.12/site-packages/datasets/builder.py", line 1889, in _prepare_split_single
                  raise DatasetGenerationCastError.from_cast_error(
              datasets.exceptions.DatasetGenerationCastError: An error occurred while generating the dataset
              
              All the data files must have the same columns, but at some point there are 7 new columns ({'ensembl', 'refseq', 'seqlength', 'igenomes', 'mitra', 'numbered', 'ucsc'}) and 8 missing columns ({'symbol', 'locus_tag', 'note', 'start', 'alias', 'strand', 'end', 'source'}).
              
              This happened while the csv dataset builder was generating data using
              
              /tmp/hf-datasets-cache/medium/datasets/50459983451204-config-parquet-and-info-BrentLab-yeast_genome_res-7d0b791c/hub/datasets--BrentLab--yeast_genome_resources/snapshots/15204a1f38339120ef69e50fcae3fcef705105ed/chrmap.csv.gz, [/tmp/hf-datasets-cache/medium/datasets/50459983451204-config-parquet-and-info-BrentLab-yeast_genome_res-7d0b791c/hub/datasets--BrentLab--yeast_genome_resources/snapshots/15204a1f38339120ef69e50fcae3fcef705105ed/brentlab_features.csv.gz (origin=hf://datasets/BrentLab/yeast_genome_resources@15204a1f38339120ef69e50fcae3fcef705105ed/brentlab_features.csv.gz), /tmp/hf-datasets-cache/medium/datasets/50459983451204-config-parquet-and-info-BrentLab-yeast_genome_res-7d0b791c/hub/datasets--BrentLab--yeast_genome_resources/snapshots/15204a1f38339120ef69e50fcae3fcef705105ed/chrmap.csv.gz (origin=hf://datasets/BrentLab/yeast_genome_resources@15204a1f38339120ef69e50fcae3fcef705105ed/chrmap.csv.gz), /tmp/hf-datasets-cache/medium/datasets/50459983451204-config-parquet-and-info-BrentLab-yeast_genome_res-7d0b791c/hub/datasets--BrentLab--yeast_genome_resources/snapshots/15204a1f38339120ef69e50fcae3fcef705105ed/intergenic_regions_metadata_5_1.csv (origin=hf://datasets/BrentLab/yeast_genome_resources@15204a1f38339120ef69e50fcae3fcef705105ed/intergenic_regions_metadata_5_1.csv), /tmp/hf-datasets-cache/medium/datasets/50459983451204-config-parquet-and-info-BrentLab-yeast_genome_res-7d0b791c/hub/datasets--BrentLab--yeast_genome_resources/snapshots/15204a1f38339120ef69e50fcae3fcef705105ed/mindel_promoters.csv.gz (origin=hf://datasets/BrentLab/yeast_genome_resources@15204a1f38339120ef69e50fcae3fcef705105ed/mindel_promoters.csv.gz)]
              
              Please either edit the data files to have matching columns, or separate them into different configurations (see docs at https://hf.co/docs/hub/datasets-manual-configuration#multiple-configurations)

Need help to make the dataset viewer work? Make sure to review how to configure the dataset viewer, and open a discussion for direct support.

chr string	start int64	end int64	strand string	type string	locus_tag string	symbol string	alias string	source string	note string
chrI	335	649	+	gene	YAL069W	YAL069W	unknown_1	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data
chrI	538	792	+	gene	YAL068W-A	YAL068W-A	unknown_2	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data B identified by gene-trapping C microarray-based expression analysis C and genome-wide homology searching
chrI	1,807	2,169	-	gene	YAL068C	PAU8	PAU8,seripauperin_PAU8	sgd/S288C_reference_genome_R64-3-1_20210421	Protein of unknown function B member of the seripauperin multigene family encoded mainly in subtelomeric regions
chrI	2,480	2,707	+	gene	YAL067W-A	YAL067W-A	unknown_4	sgd/S288C_reference_genome_R64-3-1_20210421	Putative protein of unknown function B identified by gene-trapping C microarray-based expression analysis C and genome-wide homology searching
chrI	7,235	9,016	-	gene	YAL067C	SEO1	SEO1,putative_permease_SEO1	sgd/S288C_reference_genome_R64-3-1_20210421	Putative permease B member of the allantoate transporter subfamily of the major facilitator superfamily B mutation confers resistance to ethionine sulfoxide
chrI	10,091	10,399	+	gene	YAL066W	YAL066W	unknown_6	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data
chrI	11,565	11,951	-	gene	YAL065C	YAL065C	unknown_7	sgd/S288C_reference_genome_R64-3-1_20210421	Putative protein of unknown function B shows sequence similarity to FLO1 and other flocculins
chrI	12,046	12,426	+	gene	YAL064W-B	YAL064W-B	unknown_8	sgd/S288C_reference_genome_R64-3-1_20210421	Fungal-specific protein of unknown function
chrI	13,363	13,743	-	gene	YAL064C-A	TDA8	TDA8,YAL065C-A	sgd/S288C_reference_genome_R64-3-1_20210421	Putative protein of unknown function B null mutant is sensitive to expression of the top1-T722A allele B not an essential gene
chrI	21,566	21,850	+	gene	YAL064W	YAL064W	unknown_10	sgd/S288C_reference_genome_R64-3-1_20210421	Protein of unknown function B may interact with ribosomes C based on co-purification experiments
chrI	22,395	22,685	-	gene	YAL063C-A	YAL063C-A	unknown_11	sgd/S288C_reference_genome_R64-3-1_20210421	Putative protein of unknown function B identified by expression profiling and mass spectrometry
chrI	24,000	27,968	-	gene	YAL063C	FLO9	FLO9,flocculin_FLO9	sgd/S288C_reference_genome_R64-3-1_20210421	Lectin-like protein with similarity to Flo1p B thought to be expressed and involved in flocculation
chrI	31,567	32,940	+	gene	YAL062W	GDH3	GDH3,FUN51,glutamate_dehydrogenase__NADP_+___GDH3	sgd/S288C_reference_genome_R64-3-1_20210421	NADP + -dependent glutamate dehydrogenase B synthesizes glutamate from ammonia and alpha-ketoglutarate B rate of alpha-ketoglutarate utilization differs from Gdh1p B expression regulated by nitrogen and carbon sources B GDH3 has a paralog C GDH1 C that arose from the whole genome duplication
chrI	33,448	34,701	+	gene	YAL061W	BDH2	BDH2,putative_dehydrogenase_BDH2	sgd/S288C_reference_genome_R64-3-1_20210421	Putative medium-chain alcohol dehydrogenase with similarity to BDH1 B transcription induced by constitutively active PDR1 and PDR3
chrI	35,155	36,303	+	gene	YAL060W	BDH1	BDH1,_R_CR_-butanediol_dehydrogenase,BDH	sgd/S288C_reference_genome_R64-3-1_20210421	NAD-dependent R CR -butanediol dehydrogenase B catalyzes oxidation of R CR -2 C3-butanediol to R -acetoin C oxidation of meso-butanediol to S -acetoin C and reduction of acetoin B enhances use of C3-butanediol as an aerobic carbon source
chrI	36,496	36,918	-	gene	YAL059C-A	YAL059C-A	unknown_16	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data B partially overlaps verified gene ECM1/YAL059W
chrI	36,509	37,147	+	gene	YAL059W	ECM1	ECM1	sgd/S288C_reference_genome_R64-3-1_20210421	Pre-ribosomal factor involved in S ribosomal protein subunit export B associates with the pre-60S particle B shuttles between the nucleus and cytoplasm
chrI	37,464	38,972	+	gene	YAL058W	CNE1	CNE1,FUN48,calnexin	sgd/S288C_reference_genome_R64-3-1_20210421	Calnexin B integral membrane ER chaperone involved in folding and quality control of glycoproteins B chaperone activity is inhibited by Mpd1p C with which Cne1p interacts B % identical to mammalian calnexin B Ca+ binding not yet shown in yeast
chrI	38,696	39,046	-	gene	YAL056C-A	YAL056C-A	YAL058C-A	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data
chrI	39,259	41,901	+	gene	YAL056W	GPB2	GPB2,KRH1	sgd/S288C_reference_genome_R64-3-1_20210421	Multistep regulator of cAMP-PKA signaling B inhibits PKA downstream of Gpa2p and Cyr1p C thereby increasing cAMP dependency B inhibits Ras activity through direct interactions with Ira1p/2p B regulated by G-alpha protein Gpa2p B GPB2 has a paralog C GPB1 C that arose from the whole genome duplication
chrI	42,177	42,719	+	gene	YAL055W	PEX22	PEX22,YAF5,ubiquitin-protein_transferase_activating_protein_PEX22	sgd/S288C_reference_genome_R64-3-1_20210421	Putative peroxisomal membrane protein B required for import of peroxisomal proteins B functionally complements a Pichia pastoris pex22 mutation
chrI	42,881	45,022	-	gene	YAL054C	ACS1	ACS1,FUN44,acetate--CoA_ligase_	sgd/S288C_reference_genome_R64-3-1_20210421	Acetyl-coA synthetase isoform B along with Acs2p C acetyl-coA synthetase isoform is the nuclear source of acetyl-coA for histone acetylation B expressed during growth on nonfermentable carbon sources and under aerobic conditions
chrI	45,899	48,250	+	gene	YAL053W	FLC2	FLC2,flavin_adenine_dinucleotide_transporter_FLC2	sgd/S288C_reference_genome_R64-3-1_20210421	Putative calcium channel involved in calcium release under hypotonic stress B required for uptake of FAD into endoplasmic reticulum B involved in cell wall maintenance B FLC2 has a paralog C YOR365C C that arose from the whole genome duplication
chrII	143,393	143,572	+	gene	YBL039W-B	MIN6	MIN6,YBL039W-A	sgd/S288C_reference_genome_R64-3-1_20210421	Mitochondrial protein of unknown function B mCherry fusion protein localizes to the vacuole
chrI	48,564	51,707	+	gene	YAL051W	OAF1	OAF1,YAF1,oleate-activated_transcription_factor_OAF1	sgd/S288C_reference_genome_R64-3-1_20210421	Oleate-activated transcription factor B subunit of a heterodimeric complex with Pip2p C which binds to oleate-response elements ORE in the promoter of genes involved in beta-oxidation of fatty acids C peroxisome organization and biogenesis C activating transcription in the presence of oleate B regulates chromatin silencing at telomeres B involved in diauxic shift B OAF1 has a paralog C PIP2 C that arose from the whole genome duplication
chrI	51,855	52,595	-	gene	YAL049C	AIM2	AIM2,protein_AIM2	sgd/S288C_reference_genome_R64-3-1_20210421	Cytoplasmic protein involved in mitochondrial function or organization B null mutant displays reduced frequency of mitochondrial genome loss B potential Hsp82p interactor
chrI	52,801	54,789	-	gene	YAL048C	GEM1	GEM1,ERMES_complex_Ca_+_-binding_regulatory_GTPase_GEM1,GON1	sgd/S288C_reference_genome_R64-3-1_20210421	Outer mitochondrial membrane GTPase C subunit of the ERMES complex B potential regulatory subunit of the ERMES complex that links the ER to mitochondria and may promote inter-organellar calcium and phospholipid exchange as well as coordinating mitochondrial DNA replication and growth B cells lacking Gem1p contain collapsed C globular C or grape-like mitochondria B ortholog of metazoan Miro GTPases
chrI	54,584	54,913	+	gene	YAL047W-A	YAL047W-A	unknown_27	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data B partially overlaps ORF GEM1/YAL048C
chrI	54,989	56,857	-	gene	YAL047C	SPC72	SPC72,LDB4,gamma-tubulin_complex_subunit_SPC72	sgd/S288C_reference_genome_R64-3-1_20210421	Gamma-tubulin small complex gamma-TuSC receptor B recruits the gamma-TuSC complex to the cytoplasmic side of the SPB C connecting nuclear microtubules to the SPB B involved in astral microtubule formation C stabilization C and with Stu2p C anchoring astral MTs at the cytoplasmic face of the SPB C and regulating plus-end MT dynamics B regulated by Cdc5 kinase
chrI	57,029	57,385	-	gene	YAL046C	BOL3	BOL3,AIM1	sgd/S288C_reference_genome_R64-3-1_20210421	Protein involved in Fe-S cluster transfer to mitochondrial clients B protects [4Fe-4S] clusters from damage due to oxidative stress by acting along with Nfu1p at a late step in the transfer of [4Fe-4S] clusters from the ISA complex to mitochondrial client proteins like lipoate synthase and succinate dehydrogenase B sequence similarity to human BOLA family member C BOLA3 C mutations of which are associated with Multiple Mitochondria Dysfunctions Syndrome MMDS2
chrI	57,488	57,796	-	gene	YAL045C	YAL045C	unknown_30	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data B almost completely overlaps YAL044W-A
chrI	57,518	57,850	+	gene	YAL044W-A	BOL1	BOL1	sgd/S288C_reference_genome_R64-3-1_20210421	Mitochondrial matrix protein involved in Fe-S cluster biogenesis B facilitates [4Fe-2S] cluster inception into mitochondrial proteins such as lipoate synthase and succinate dehydrogenase B interacts and may function with Grx5p at an early step in Fe-S cluster biosynthesis B forms dimeric complexes with Grx5p and Nfu1p that alter the stability of shared Fe/S clusters B sequence similarity to human BOLA family member C BOLA1 and S. pombe uvi31 C a putative DNA repair protein
chrI	57,950	58,462	-	gene	YAL044C	GCV3	GCV3,glycine_decarboxylase_subunit_H	sgd/S288C_reference_genome_R64-3-1_20210421	H subunit of the mitochondrial glycine decarboxylase complex B glycine decarboxylase is required for the catabolism of glycine to C10-methylene-THF B also required for all protein lipoylation B expression is regulated by levels of C10-methylene-THF
chrI	58,695	61,052	-	gene	YAL043C	PTA1	PTA1,FUN39,RNA-processing_protein_PTA1	sgd/S288C_reference_genome_R64-3-1_20210421	Subunit of holo-CPF B holo-CPF is a multiprotein complex and functional homolog of mammalian CPSF C required for the cleavage and polyadenylation of mRNA and snoRNA ' ends B involved in pre-tRNA processing B binds to the phosphorylated CTD of RNAPII
chrI	61,231	61,608	-	gene	YAL042C-A	YAL042C-A	YAL043C-A	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data B partially overlaps verified ORF ERV46/YAL042W B YAL042C-A is a non-essential gene
chrI	61,316	62,563	+	gene	YAL042W	ERV46	ERV46,FUN9	sgd/S288C_reference_genome_R64-3-1_20210421	Protein localized to COPII-coated vesicles B forms a complex with Erv41p B involved in the membrane fusion stage of transport
chrI	62,840	65,404	+	gene	YAL041W	CDC24	CDC24,CLS4,Rho_family_guanine_nucleotide_exchange_factor_CDC24	sgd/S288C_reference_genome_R64-3-1_20210421	Guanine nucleotide exchange factor GEF for Cdc42p B required for polarity establishment and maintenance C and mutants have morphological defects in bud formation and shmooing B relocalizes from nucleus to cytoplasm upon DNA replication stress B thermosensitivity of the cdc24-4 mutant in the presence of sorbitol is functionally complemented by human CDC42
chrI	65,778	67,520	-	gene	YAL040C	CLN3	CLN3,DAF1,FUN10,WHI1,cyclin_CLN3	sgd/S288C_reference_genome_R64-3-1_20210421	G1 cyclin involved in cell cycle progression B activates Cdc28p kinase to promote G1 to S phase transition B plays a role in regulating transcription of other G1 cyclins C CLN1 and CLN2 B regulated by phosphorylation and proteolysis B acetyl-CoA induces CLN3 transcription in response to nutrient repletion to promote cell-cycle entry B cell cycle arrest phenotype of the cln1 cln2 cln3 triple null mutant is complemented by any of human cyclins CCNA2 C CCNB1 C CCNC C CCND1 C or CCNE1
chrI	68,716	69,525	-	gene	YAL039C	CYC3	CYC3,CCHL,holocytochrome_c_synthase_CYC3	sgd/S288C_reference_genome_R64-3-1_20210421	Cytochrome c heme lyase holocytochrome c synthase B attaches heme to apo-cytochrome c Cyc1p or Cyc7p in mitochondrial intermembrane space B human homolog HCCS implicated in microphthalmia with linear skin defects MLS C and can complement yeast null mutant
chrI	71,786	73,288	+	gene	YAL038W	CDC19	CDC19,PYK1,pyruvate_kinase_CDC19	sgd/S288C_reference_genome_R64-3-1_20210421	Pyruvate kinase B functions as a homotetramer in glycolysis to convert phosphoenolpyruvate to pyruvate C the input for aerobic TCA cycle or anaerobic glucose fermentation respiration B regulated via allosteric activation by fructose bisphosphate B CDC19 has a paralog C PYK2 C that arose from the whole genome duplication
chrVII	594,986	595,837	-	gene	YGR053C	MCO32	MCO32	sgd/S288C_reference_genome_R64-3-1_20210421	Putative protein of unknown function
chrI	72,326	73,300	-	gene	YAL037C-B	YAL037C-B	unknown_40	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data B identified by gene-trapping C microarray-based expression analysis C and genome-wide homology searching
chrI	73,426	73,518	-	gene	YAL037C-A	YAL037C-A	unknown_41	sgd/S288C_reference_genome_R64-3-1_20210421	Putative protein of unknown function
chrI	74,020	74,823	+	gene	YAL037W	YAL037W	unknown_42	sgd/S288C_reference_genome_R64-3-1_20210421	Putative protein of unknown function B YAL037W has a paralog C YOR342C C that arose from the whole genome duplication
chrI	75,043	76,152	-	gene	YAL036C	RBG1	RBG1,FUN11,GTP-binding_protein_RBG1	sgd/S288C_reference_genome_R64-3-1_20210421	Member of the DRG family of GTP-binding proteins B associates with translating ribosomes B interacts with Tma46p C Ygr250cp C Gir2p and Yap1p via two-hybrid
chrI	76,427	79,435	+	gene	YAL035W	FUN12	FUN12,eIF5B,translation_initiation_factor_eIF5B,yIF2	sgd/S288C_reference_genome_R64-3-1_20210421	Translation initiation factor eIF5B B GTPase that promotes Met-tRNAiMet binding to ribosomes and ribosomal subunit joining B promotes GTP-dependent maturation of S rRNA by Nob1p B protein abundance increases in response to DNA replication stress B homolog of bacterial IF2
chrI	79,489	79,842	-	gene	YAL034C-B	YAL034C-B	YAL035C-A	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data
chrI	79,718	80,587	+	gene	YAL034W-A	MTW1	MTW1,DSN3,MIND_complex_subunit_MTW1,NSL2	sgd/S288C_reference_genome_R64-3-1_20210421	Essential component of the MIND kinetochore complex B joins kinetochore subunits contacting DNA to those contacting microtubules B critical to kinetochore assembly B complex consists of Mtw1p Including Nnf1p-Nsl1p-Dsn1p MIND
chrI	80,710	81,951	-	gene	YAL034C	FUN19	FUN19	sgd/S288C_reference_genome_R64-3-1_20210421	Non-essential protein of unknown function B expression induced in response to heat stress B FUN19 has a paralog C YOR338W C that arose from the whole genome duplication
chrI	82,706	83,227	+	gene	YAL033W	POP5	POP5,FUN53,RNA-binding_protein_POP5	sgd/S288C_reference_genome_R64-3-1_20210421	Subunit of both RNase MRP and nuclear RNase P B RNase MRP cleaves pre-rRNA C while nuclear RNase P cleaves tRNA precursors to generate mature ' ends and facilitates turnover of nuclear RNAs
chrI	83,335	84,474	-	gene	YAL032C	PRP45	PRP45,FUN20,mRNA_splicing_protein_PRP45	sgd/S288C_reference_genome_R64-3-1_20210421	Protein required for pre-mRNA splicing B associates with the spliceosome and interacts with splicing factors Prp22p and Prp46p B orthologous to human transcriptional coactivator SKIP and can activate transcription of a reporter gene
chrI	84,669	84,977	+	gene	YAL031W-A	YAL031W-A	unknown_50	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data B partially overlaps ORF GIP4/YAL031C
chrI	84,749	87,031	-	gene	YAL031C	GIP4	GIP4,FUN21,protein_phosphatase_regulator_GIP4	sgd/S288C_reference_genome_R64-3-1_20210421	Cytoplasmic protein that regulates protein phosphatase Glc7p B protein overexpression relocalizes Glc7p from the nucleus and prevents chromosome segregation B potential Cdc28p substrate
chrI	87,286	87,752	+	gene	YAL030W	SNC1	SNC1,SNAP_receptor_SNC1	sgd/S288C_reference_genome_R64-3-1_20210421	Vesicle membrane receptor protein v-SNARE B involved in the fusion between Golgi-derived secretory vesicles with the plasma membrane B proposed to be involved in endocytosis B member of the synaptobrevin/VAMP family of R-type v-SNARE proteins B SNC1 has a paralog C SNC2 C that arose from the whole genome duplication
chrI	87,855	92,270	-	gene	YAL029C	MYO4	MYO4,FUN22,SHE1,myosin_	sgd/S288C_reference_genome_R64-3-1_20210421	Type V myosin motor involved in actin-based transport of cargos B required for mRNA transport C including ASH1 mRNA C and facilitating the growth and movement of ER tubules into the growing bud along with She3p B MYO4 has a paralog C MYO2 C that arose from the whole genome duplication
chrI	92,900	94,486	+	gene	YAL028W	FRT2	FRT2,HPH2	sgd/S288C_reference_genome_R64-3-1_20210421	Tail-anchored ER membrane protein of unknown function B interacts with homolog Frt1p B promotes growth in conditions of high Na+ C alkaline pH C or cell wall stress C possibly via a role in posttranslational translocation B potential Cdc28p substrate B FRT2 has a paralog C FRT1 C that arose from the whole genome duplication
chrI	94,687	95,472	+	gene	YAL027W	SAW1	SAW1,DNA-binding_protein_SAW1	sgd/S288C_reference_genome_R64-3-1_20210421	5'- and '-flap DNA binding protein B recruits Rad1p-Rad10p to single-strand annealing intermediates with ' non-homologous tails for removal during double-strand break repair B complexes with Rad1p-Rad10p and stimulates its endonuclease activity B green fluorescent protein GFP -fusion protein localizes to the nucleus
chrI	95,386	95,823	-	gene	YAL026C-A	YAL026C-A	unknown_56	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data B partially overlaps the uncharacterized ORF YAL027W and the verified gene DRS2
chrI	95,630	99,697	-	gene	YAL026C	DRS2	DRS2,FUN38,SWA3,aminophospholipid-translocating_P4-type_ATPase_DRS2	sgd/S288C_reference_genome_R64-3-1_20210421	Trans-golgi network aminophospholipid translocase flippase B maintains membrane lipid asymmetry in post-Golgi secretory vesicles B contributes to clathrin-coated vesicle formation C endocytosis C protein trafficking between the Golgi and endosomal system and the cellular response to mating pheromone B autoinhibited by its C-terminal tail B localizes to the trans-Golgi network B mutations in human homolog ATP8B1 result in liver disease
chrI	99,305	99,868	+	ncRNA_gene	YNCA0001W	HRA1	HRA1	sgd/S288C_reference_genome_R64-3-1_20210421	Non-protein-coding RNA B substrate of RNase P C possibly involved in rRNA processing C specifically maturation of S precursor into the mature S rRNA
chrI	100,225	101,145	-	gene	YAL025C	MAK16	MAK16,ribosome_biosynthesis_protein_MAK16	sgd/S288C_reference_genome_R64-3-1_20210421	Essential nuclear protein B constituent of S pre-ribosomal particles B required for maturation of S and .8S rRNAs B required for maintenance of M1 satellite double-stranded RNA of the L-A virus
chrI	101,565	105,872	-	gene	YAL024C	LTE1	LTE1,MSI2,mitotic_regulator_LTE1	sgd/S288C_reference_genome_R64-3-1_20210421	Protein similar to GDP/GTP exchange factors B without detectable GEF activity B required for asymmetric localization of Bfa1p at daughter-directed spindle pole bodies and for mitotic exit at low temperatures
chrI	106,272	108,551	-	gene	YAL023C	PMT2	PMT2,FUN25,dolichyl-phosphate-mannose-protein_mannosyltransferase_PMT2	sgd/S288C_reference_genome_R64-3-1_20210421	Protein O-mannosyltransferase of the ER membrane B transfers mannose residues from dolichyl phosphate-D-mannose to protein serine/threonine residues B involved in ER quality control B functions as a heterodimer with Pmt2p but can also pair with Pmt5p B antifungal drug target B PMT2 has a paralog C PMT3 C that arose from the whole genome duplication
chrI	108,877	110,430	-	gene	YAL022C	FUN26	FUN26,nucleoside_transmembrane_transporter_FUN26	sgd/S288C_reference_genome_R64-3-1_20210421	High affinity C broad selectivity C nucleoside/nucleobase transporter B vacuolar membrane localized transporter which may regulate the balance of nicotinamide riboside NmR levels between the cytosol and vacuole C contributing to salvage of NmR for use in cytosolic NAD+ synthesis B equilibrative nucleoside transporter ENT family member
chrI	110,846	113,359	-	gene	YAL021C	CCR4	CCR4,CCR4-NOT_core_exoribonuclease_subunit_CCR4,FUN27,NUT21	sgd/S288C_reference_genome_R64-3-1_20210421	Component of the CCR4-NOT transcriptional complex B CCR4-NOT is involved in regulation of gene expression B component of the major cytoplasmic deadenylase C which is involved in mRNA poly A tail shortening
chrI	113,614	114,615	-	gene	YAL020C	ATS1	ATS1,FUN28,KTI13	sgd/S288C_reference_genome_R64-3-1_20210421	Protein required for modification of wobble nucleosides in tRNA B acts with Elongator complex C Kti11p C and Kti12p B has a potential role in regulatory interactions between microtubules and the cell cycle B forms a stable heterodimer with Kti11p
chrI	114,250	114,819	+	gene	YAL019W-A	YAL019W-A	unknown_65	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data B partially overlaps ORF ATS1/YAL020C
chrI	114,919	118,314	+	gene	YAL019W	FUN30	FUN30,DNA-dependent_ATPase_FUN30	sgd/S288C_reference_genome_R64-3-1_20210421	Snf2p family member with ATP-dependent chromatin remodeling activity B has a role in silencing at the mating type locus C telomeres and centromeres B enriched at centromeres and is required for correct chromatin structure around centromeres C as well as at the boundary element of the silent HMR B recruited to DNA double-strand breaks DSBs where it promotes ' strand resection of DSBs B potential Cdc28p substrate
chrI	118,564	119,541	-	gene	YAL018C	LDS1	LDS1	sgd/S288C_reference_genome_R64-3-1_20210421	Protein Involved in spore wall assembly B localizes to lipid droplets found on or outside of the prospore membrane B shares similarity with Lds2p and Rrt8p C and a strain mutant for all genes exhibits reduced dityrosine fluorescence relative to the single mutants
chrI	120,225	124,295	+	gene	YAL017W	PSK1	PSK1,FUN31,serine/threonine_protein_kinase_PSK1	sgd/S288C_reference_genome_R64-3-1_20210421	PAS domain-containing serine/threonine protein kinase B coordinately regulates protein synthesis and carbohydrate metabolism and storage in response to a unknown metabolite that reflects nutritional status B PSK1 has a paralog C PSK2 C that arose from the whole genome duplication
chrI	124,307	124,492	-	gene	YAL016C-B	YAL016C-B	unknown_69	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data
chrI	124,755	125,069	-	gene	YAL016C-A	YAL016C-A	unknown_70	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data B partially overlaps ORF TPD3/YAL016W
chrI	124,879	126,786	+	gene	YAL016W	TPD3	TPD3,FUN32,protein_phosphatase_A_structural_subunit_TPD3	sgd/S288C_reference_genome_R64-3-1_20210421	Regulatory subunit A of the heterotrimeric PP2A complex B the heterotrimeric protein phosphatase A PP2A complex also contains regulatory subunit Cdc55p and either catalytic subunit Pph21p or Pph22p B required for cell morphogenesis and transcription by RNA polymerase III
chrI	126,903	128,102	-	gene	YAL015C	NTG1	NTG1,FUN33,SCR1,bifunctional_N-glycosylase/AP_lyase_NTG1,ogg2	sgd/S288C_reference_genome_R64-3-1_20210421	DNA N-glycosylase and apurinic/apyrimidinic AP lyase B involved in base excision repair B acts in both nucleus and mitochondrion B creates a double-strand break at mtDNA origins that stimulates replication in response to oxidative stress B required for maintaining mitochondrial genome integrity B NTG1 has a paralog C NTG2 C that arose from the whole genome duplication
chrI	128,252	129,019	-	gene	YAL014C	SYN8	SYN8,SLT2,UIP2,syntaxin	sgd/S288C_reference_genome_R64-3-1_20210421	Endosomal SNARE related to mammalian syntaxin
chrI	129,270	130,487	+	gene	YAL013W	DEP1	DEP1,FUN54,Rpd3L_histone_deacetylase_complex_subunit_DEP1	sgd/S288C_reference_genome_R64-3-1_20210421	Component of the Rpd3L histone deacetylase complex B required for diauxic shift-induced histone H2B deposition onto rDNA genes B transcriptional modulator involved in regulation of structural phospholipid biosynthesis genes and metabolically unrelated genes C as well as maintenance of telomeres C mating efficiency C and sporulation
chrI	130,799	131,983	+	gene	YAL012W	CYS3	CYS3,CYI1,FUN35,STR1,cystathionine_gamma-lyase_CYS3	sgd/S288C_reference_genome_R64-3-1_20210421	Cystathionine gamma-lyase B catalyzes one of the two reactions involved in the transsulfuration pathway that yields cysteine from homocysteine with the intermediary formation of cystathionine B protein abundance increases in response to DNA replication stress
chrI	132,199	134,076	+	gene	YAL011W	SWC3	SWC3,SWC1	sgd/S288C_reference_genome_R64-3-1_20210421	Protein of unknown function B component of the SWR1 complex C which exchanges histone variant H2AZ Htz1p for chromatin-bound histone H2A B required for formation of nuclear-associated array of smooth endoplasmic reticulum known as karmellae
chrI	192,337	192,417	-	gene	YAR035C-A	YAR035C-A	unknown_112	sgd/S288C_reference_genome_R64-3-1_20210421	Putative protein of unknown function B emerging ORF that arose de novo from non-genic locus B identified by gene-trapping C microarray-based expression analysis C and genome-wide homology searching B localizes to mitochondria
chrI	134,184	135,665	-	gene	YAL010C	MDM10	MDM10,FUN37	sgd/S288C_reference_genome_R64-3-1_20210421	Subunit of both the ERMES and the SAM complex B component of ERMES complex which acts as a molecular tether between the mitochondria and the ER C necessary for efficient phospholipid exchange between organelles and for mitophagy B SAM/TOB complex component that functions in the assembly of outer membrane beta-barrel proteins B involved in mitochondrial inheritance and morphology B ERMES complex is often co-localized with peroxisomes and concentrated areas of pyruvate dehydrogenase
chrI	135,854	136,633	+	gene	YAL009W	SPO7	SPO7,Nem1-Spo7_phosphatase_regulatory_subunit_SPO7	sgd/S288C_reference_genome_R64-3-1_20210421	Putative regulatory subunit of Nem1p-Spo7p phosphatase holoenzyme B regulates nuclear growth by controlling phospholipid biosynthesis C required for normal nuclear envelope morphology C premeiotic replication C and sporulation
chrI	136,914	137,510	+	gene	YAL008W	FUN14	FUN14,MCP3	sgd/S288C_reference_genome_R64-3-1_20210421	Integral mitochondrial outer membrane MOM protein B dosage suppressor of an MDM10 null that reduces ERMES-related phenotypes C such as alterations in mitochondrial morphology C protein complex assembly C and lipid profile B dosage suppressor of MDM12 C MDM34 C and MMM1 null mutant growth defects B novel mechanism of MOM import involving Tom70p C the TOM complex C and the TIM23 complex C requiring mitochondrial membrane potential and processing by the IMP complex for correct biogenesis
chrI	137,698	138,345	-	gene	YAL007C	ERP2	ERP2	sgd/S288C_reference_genome_R64-3-1_20210421	Member of the p24 family involved in ER to Golgi transport B similar to Emp24p and Erv25p B role in misfolded protein quality control B forms a heterotrimeric complex with Erp1p C Emp24p C and Erv25p B localized to COPII-coated vesicles B ERP2 has a paralog C ERP4 C that arose from the whole genome duplication
chrI	139,152	139,254	+	tRNA_gene	YNCA0002W	TRN1	TRN1,tP_UGG_A	sgd/S288C_reference_genome_R64-3-1_20210421	Proline tRNA tRNA-Pro C predicted by tRNAscan-SE analysis B target of K. lactis zymocin B can mutate to suppress +1 frameshift mutations in proline codons
chrI	139,503	141,431	-	gene	YAL005C	SSA1	SSA1,Hsp70_family_ATPase_SSA1,YG100	sgd/S288C_reference_genome_R64-3-1_20210421	ATPase involved in protein folding and NLS-directed nuclear transport B member of HSP70 family B required for ubiquitin-dependent degradation of short-lived proteins B forms chaperone complex with Ydj1p B localized to nucleus C cytoplasm C cell wall B % identical to paralog Ssa2p with different functional specificity in propagation of yeast [URE3] prions C vacuolar-mediated degradations of gluconeogenesis enzymes B general targeting factor of Hsp104p to prion fibrils
chrI	140,760	141,407	+	gene	YAL004W	YAL004W	unknown_83	sgd/S288C_reference_genome_R64-3-1_20210421	Dubious open reading frame B unlikely to encode a functional protein C based on available experimental and comparative sequence data B completely overlaps verified gene SSA1/YAL005C
chrI	142,174	143,160	+	gene	YAL003W	EFB1	EFB1,EF-1beta,TEF5,eEF1Balpha,translation_elongation_factor__subunit_beta	sgd/S288C_reference_genome_R64-3-1_20210421	Translation elongation factor beta B stimulates nucleotide exchange to regenerate EF-1 alpha-GTP for the next elongation cycle B part of the EF-1 complex C which facilitates binding of aminoacyl-tRNA to the ribosomal A site B human homolog EEF1B2 can complement yeast efb1 mutants
chrI	142,367	142,468	+	snoRNA_gene	YNCA0003W	SNR18	SNR18,snR18	sgd/S288C_reference_genome_R64-3-1_20210421	C/D box small nucleolar RNA snoRNA B commonly referred to as U18 B guides '-O-methylation of large subunit LSU rRNA at positions A649 and C650
chrI	143,707	147,531	+	gene	YAL002W	VPS8	VPS8,CORVET_complex_membrane-binding_subunit_VPS8,FUN15,VPL8,VPT8	sgd/S288C_reference_genome_R64-3-1_20210421	Membrane-binding component of the CORVET complex B involved in endosomal vesicle tethering and fusion in the endosome to vacuole protein targeting pathway B interacts with Vps21p B contains RING finger motif
chrI	147,594	151,166	-	gene	YAL001C	TFC3	TFC3,FUN24,TSV115,tau_,transcription_factor_TFIIIC_subunit_TFC3	sgd/S288C_reference_genome_R64-3-1_20210421	Subunit of RNA polymerase III transcription initiation factor complex B part of TauB domain of TFIIIC that binds DNA at BoxB promoter sites of tRNA and similar genes B cooperates with Tfc6p in DNA binding B largest of six subunits of RNA polymerase III transcription initiation factor complex TFIIIC B colocalizes with condensin at pol III genes and several ETC “extra TFIIIC ” sites B may have a role in recruiting or stabilizing Scc2/4 and condensin on chromosomes
chrI	152,257	153,876	+	gene	YAR002W	NUP60	NUP60,FG-nucleoporin_NUP60	sgd/S288C_reference_genome_R64-3-1_20210421	FG-nucleoporin component of central core of the nuclear pore complex B contributes directly to nucleocytoplasmic transport and maintenance of the nuclear pore complex NPC permeability barrier and is involved in gene tethering at the nuclear periphery B relocalizes to the cytosol in response to hypoxia B both NUP1 and NUP60 are homologous to human NUP153
chrI	154,065	154,724	-	gene	YAR002C-A	ERP1	ERP1	sgd/S288C_reference_genome_R64-3-1_20210421	Member of the p24 family involved in ER to Golgi transport B role in misfolded protein quality control B forms heterotrimeric complex with Erp2p C Emp24p C and Erv25p B localized to COPII-coated vesicles B ERP1 has a paralog C ERP6 C that arose from the whole genome duplication
chrI	155,005	156,285	+	gene	YAR003W	SWD1	SWD1,COMPASS_subunit_protein_SWD1,CPS50,FUN16,SAF49	sgd/S288C_reference_genome_R64-3-1_20210421	Subunit of the COMPASS Set1C complex B COMPASS methylates histone H3 on lysine and is required in transcriptional silencing near telomeres B WD40 beta propeller superfamily member with similarity to mammalian Rbbp7
chrI	156,754	158,619	-	gene	YAR007C	RFA1	RFA1,BUF2,FUN3,RPA1,RPA70,replication_factor_A_subunit_protein_RFA1	sgd/S288C_reference_genome_R64-3-1_20210421	Subunit of heterotrimeric Replication Protein A RPA B RPA is a highly conserved single-stranded DNA binding protein involved in DNA replication C repair C and recombination B RPA protects against inappropriate telomere recombination C and upon telomere uncapping C prevents cell proliferation by a checkpoint-independent pathway B role in DNA catenation/decatenation pathway of chromosome disentangling B relocalizes to the cytosol in response to hypoxia
chrI	192,619	196,185	+	gene	YAR042W	SWH1	SWH1,OSH1,YAR044W,oxysterol-binding_protein_related_protein_SWH1	sgd/S288C_reference_genome_R64-3-1_20210421	Protein similar to mammalian oxysterol-binding protein B contains ankyrin repeats and FFAT motif B interacts with ER anchor Scs2p at the nucleus-vacuole junction B regulated by sterol binding B SWH1 has a paralog C OSH2 C that arose from the whole genome duplication
chrI	158,966	159,793	+	gene	YAR008W	SEN34	SEN34,FUN4,tRNA_splicing_endonuclease_subunit_SEN34	sgd/S288C_reference_genome_R64-3-1_20210421	Subunit of the tRNA splicing endonuclease B tRNA splicing endonuclease Sen complex is composed of Sen2p C Sen15p C Sen34p C and Sen54p B Sen complex also cleaves the CBP1 mRNA at the mitochondrial surface B Sen34p contains the active site for tRNA ' splice site cleavage and has similarity to Sen2p and to Archaeal tRNA splicing endonuclease
chrI	160,597	164,187	-	transposable_element_gene	YAR009C	YAR009C	YARCTyB1-1,truncated_gag-pol_fusion_protein	sgd/S288C_reference_genome_R64-3-1_20210421	Retrotransposon TYA Gag and TYB Pol genes B Gag processing produces capsid proteins C Pol is cleaved to produce protease C reverse transcriptase and integrase activities B in YARCTy1-1 TYB is mutant and probably non-functional B protein product forms cytoplasmic foci upon DNA replication stress
chrI	164,544	165,866	-	transposable_element_gene	YAR010C	YAR010C	YARCTyA1-1,gag_protein	sgd/S288C_reference_genome_R64-3-1_20210421	Retrotransposon TYA Gag gene co-transcribed with TYB Pol B Gag processing produces capsid proteins B in YARCTy1-1 TYB is mutant and probably non-functional
chrI	166,267	166,339	+	tRNA_gene	YNCA0004W	TGA1	TGA1,tA_UGC_A	sgd/S288C_reference_genome_R64-3-1_20210421	Alanine tRNA tRNA-Ala C predicted by tRNAscan-SE analysis B one of nuclear tRNA genes containing the tDNA-anticodon TGC mature tRNA may be UGC or may contain modified bases C decodes GCA and probably GCG codons into alanine C one of nuclear tRNAs for alanine
chrI	166,742	168,871	-	gene	YAR014C	BUD14	BUD14,protein_phosphatase_regulator_BUD14	sgd/S288C_reference_genome_R64-3-1_20210421	Protein involved in bud-site selection B Bud14p-Glc7p complex is a cortical regulator of dynein B forms a complex with Kel1p and Kel2p that regulates Bnr1p formin to affect actin cable assembly C cytokinesis C and polarized growth B diploid mutants display a random budding pattern instead of the wild-type bipolar pattern B relative distribution to the nucleus increases upon DNA replication stress

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BrentLab Yeast Genome Resources

This Dataset stores resources meant to aid in the exploration of yeast -omic data, curated by the Brent Lab.

Terminology

Across all datasets in the BrentLab collection, we use the following terms consistently

locus_tag: The systematic ID of an ORF. Eg, YKL038W
symbol: The common name of an ORF. Eg, RGT1
target: when the genomic locus is the 'target' of location of measurement, then it is referred to as a 'target'. Eg, in RNAseq, the column target_locus_tag would store the counts over that gene.
regulator: This collection is made up of binding location assays, and perturbation of transcription factors and chromatin interacting proteins, which I refer to generally as 'regulators'

This repo provides the following:

You can find these by clicking on the files and versions tab. The file format is noted.

brentlab_features (csv): This is a simplified version of the SGD S288C-R64-3-1 annotations. We have used this file to standardize target and regulator locus_tag and symbol across the other datasets in this collection.
yiming_promoters (bed): The promoter regions used in Kang et al in the Dual threshold optimization paper. These promoter regions are used for callingcards.
mindel_promoters (csv): The promoters used by the Barkai lab to evaluate the overlap between perturbation and binding in the Mahendrawada 2025 set in this preprint. See scripts/create_promoter_bed_from_mindel.R. The column in_mahendrawada_features is TRUE if the locus_tag is in the feature set used by Mahendrawada 2025, which is only protein coding genes which are not labeled dubious. The column promoter_exact_aligns provides a tally of how many times the promoter sequence aligns exactly from end to end with no gaps in the genome. Most align only once, which is what we would expect for a 700+ bp sequence. However, there are 12 loci with up to 4 exact alignments. I didn't examine these beyond confirming the multiple alignments -- I suspect that it is due to repeat regions. It is noted because it is surprising that such long sequences had multiple perfect alignments.
gal_tss_sgd-5-1_verified_orf (bed): Genomic coordinates of Transcription Start Sites (TSS) for verified ORFs under Galactose culture conditions. These are derived from annotation version S288C-R64-5-1. See scripts/create_tss_files.R
median_across_conds_tss_sgd-5-1_verified_orf (bed): Median Transcription Start Site (TSS) coordinates for verified ORFs aggregated across different experimental conditions. See scripts/create_tss_files.R
ypd_tss_sgd-5-1_verified_orf (bed): Genomic coordinates of Transcription Start Sites (TSS) for verified ORFs under standard YPD (rich medium) culture conditions. See scripts/create_tss_files.R
intergenic_regions_5_1 (bed and fasta): Both the genomic coordinates and sequences of the intergenic regions in version S288C-R64-5-1. See scripts/parse_intergenic_regions.R
chrmap (csv): This file provides a mapping between chromosome names between, eg UCSC, ensembl, etc.

Usage

Currently, we expect that this will be used for its raw files, eg by downloading a given file and opening it in your favorite program.

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Collection including BrentLab/yeast_genome_resources

yeastresources

Collection

Data collected and harmonized for the Brent lab at Washington University • 11 items • Updated Jan 7 • 1