gallery / domain / malassezia_vs_ustilaginomycotina / pairwise-diamond / enrichment (novelty)

malassezia vs ustilaginomycotina: functional enrichment (novelty)

One-sided hypergeometric test per term; Benjamini-Hochberg FDR within each scope, level and vocabulary. Candidates are the novelty candidates: gene families present in the IN group and absent from the OUT group. Universe: proteome. Background clustered: True (40799 sequences in 9408 clusters, mmseqs easy-cluster --min-seq-id 0.3 -c 0.8). Family level: one unit per candidate family and per background cluster.

Sources: Pfam: 2026-01-27-Pfam38.2; InterPro entries: 110.0; GO: releases/2026-07-26; analysis generated 2026-10-12T18:40:35. Source tables: studies/fungi/malassezia_vs_ustilaginomycotina/analysis/enrichment/outputs/proteome_clustered. Full record: PROVENANCE. Run report: report.html.

Caveats

Annotation provenance is not fully recorded: PROVENANCE.yaml lists the per-species annotation files and their checksums, but not the UniProt release they come from.
GO results are secondary. GO annotations include computational evidence (IEA, IBA); the GO evidence column shows if a term has non-IEA support.
Candidate families (pipeline clustering of candidates) and background clusters (mmseqs clustering of the background proteome) are made by different runs, so family-level counts are not fully comparable.
Low annotation: the candidate set has less than 50% annotation for Pfam 7.0%, InterPro 10.2%, GO 3.4%, any vocabulary 10.2%. Enrichment for these vocabularies has low power.

Summary figure

Annotation coverage

Fraction of proteins with at least one term per vocabulary. Universe = all proteins of the species; candidates = the candidate set.

Species	Set	Proteins	Pfam	Pfam clan	InterPro	GO	Any
Malaglob	universe	4270	83.8%	67.5%	90.2%	82.3%	90.5%
Malaglob	candidates	69	5.8%	2.9%	10.1%	2.9%	10.1%
Malasymp	universe	4490	85.7%	68.1%	90.4%	82.7%	90.6%
Malasymp	candidates	43	7.0%	4.7%	9.3%	4.7%	9.3%
Malarest	universe	4097	86.9%	69.6%	91.1%	84.4%	91.3%
Malarest	candidates	59	6.8%	5.1%	10.2%	3.4%	10.2%
Malafurf	universe	4532	82.7%	66.1%	88.4%	81.2%	89.0%
Malafurf	candidates	75	8.0%	4.0%	9.3%	1.3%	9.3%
Malapach	universe	4201	86.6%	69.2%	90.8%	83.3%	91.0%
Malapach	candidates	51	3.9%	2.0%	7.8%	2.0%	7.8%
Malavesp	universe	3791	86.8%	70.7%	91.2%	84.7%	91.5%
Malavesp	candidates	41	4.9%	2.4%	9.8%	7.3%	9.8%
Malanana	universe	3953	85.7%	69.3%	90.7%	83.6%	91.1%
Malanana	candidates	51	9.8%	3.9%	11.8%	5.9%	11.8%
Malabras	universe	3911	87.1%	70.9%	91.4%	84.5%	91.8%
Malabras	candidates	43	7.0%	7.0%	11.6%	0.0%	11.6%
Malajapo	universe	4299	86.3%	69.5%	91.0%	83.5%	91.4%
Malajapo	candidates	41	4.9%	0.0%	7.3%	2.4%	7.3%
Malaarun	universe	3785	86.3%	69.9%	90.9%	84.1%	91.2%
Malaarun	candidates	57	10.5%	8.8%	14.0%	5.3%	14.0%
ALL_IN	universe	41329	85.7%	69.0%	90.6%	83.4%	90.9%
ALL_IN	candidates	530	7.0%	4.2%	10.2%	3.4%	10.2%

Tests summary

Per vocabulary: terms with FDR < 0.05 / terms tested. Protein level counts proteins; family level counts candidate families and background clusters.

Scope	Level	Cand. units	Pfam sig / tested	Pfam clan sig / tested	InterPro sig / tested	GO sig / tested
whole_set	family	304	0 / 563	0 / 263	0 / 1302	0 / 2685
whole_set	protein	530	7 / 3386	2 / 437	11 / 7341	2 / 5057
Malaarun	family	57	0 / 118	0 / 148	0 / 377	0 / 1576
Malaarun	protein	57	0 / 133	0 / 153	0 / 425	0 / 1602
Malabras	family	43	0 / 126	0 / 153	0 / 404	0 / 0 (skipped_no_annotated_candidates)
Malabras	protein	43	0 / 144	0 / 159	0 / 458	0 / 0 (skipped_no_annotated_candidates)
Malafurf	family	75	0 / 130	0 / 153	0 / 399	0 / 1678
Malafurf	protein	75	0 / 157	0 / 162	0 / 468	0 / 1722
Malaglob	family	69	0 / 131	0 / 144	0 / 407	0 / 1647
Malaglob	protein	69	0 / 149	0 / 151	0 / 463	0 / 1678
Malajapo	family	41	0 / 135	0 / 0 (skipped_no_annotated_candidates)	0 / 421	0 / 1674
Malajapo	protein	41	0 / 162	0 / 0 (skipped_no_annotated_candidates)	0 / 488	0 / 1723
Malanana	family	51	0 / 127	0 / 144	0 / 404	0 / 1618
Malanana	protein	51	0 / 142	0 / 154	0 / 462	0 / 1655
Malapach	family	51	0 / 134	0 / 156	0 / 415	0 / 1663
Malapach	protein	51	0 / 153	0 / 163	0 / 470	0 / 1700
Malarest	family	59	0 / 129	0 / 151	0 / 407	0 / 1643
Malarest	protein	59	0 / 146	0 / 157	0 / 454	0 / 1679
Malasymp	family	43	0 / 134	0 / 155	0 / 410	0 / 1681
Malasymp	protein	43	0 / 159	0 / 165	0 / 488	0 / 1731
Malavesp	family	40	0 / 122	0 / 148	0 / 403	0 / 1610
Malavesp	protein	41	0 / 141	0 / 156	0 / 446	0 / 1644

Top 25 Pfam terms (whole set, family level)

25 rows shown, ordered by FDR then p-value; 0 have FDR < 0.05 (bold).

Term	Name	k / N cand.	n / M bg	Fold	FDR (BH)
PF00385	Chromo: Chromo (CHRromatin Organisation MOdifier) domain	2 / 20	9 / 7438	82.644	0.138
PF05047	L51_S25_CI-B8: Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain	1 / 20	5 / 7438	74.38	1.000
PF13041	PPR_2: PPR repeat family	1 / 20	5 / 7438	74.38	1.000
PF01535	PPR: PPR repeat	1 / 20	10 / 7438	37.19	1.000
PF12937	F-box-like: F-box-like	1 / 20	14 / 7438	26.564	1.000
PF00004	AAA: ATPase family associated with various cellular activities (AAA)	0 / 20	47 / 7438	0.0	1.000
PF00005	ABC_tran: ABC transporter	0 / 20	38 / 7438	0.0	1.000
PF00006	ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain	0 / 20	5 / 7438	0.0	1.000
PF00009	GTP_EFTU: Elongation factor Tu GTP binding domain	0 / 20	17 / 7438	0.0	1.000
PF00010	HLH: Helix-loop-helix DNA-binding domain	0 / 20	20 / 7438	0.0	1.000
PF00012	HSP70: Hsp70 protein	0 / 20	10 / 7438	0.0	1.000
PF00018	SH3_1: SH3 domain	0 / 20	29 / 7438	0.0	1.000
PF00022	Actin: Actin	0 / 20	14 / 7438	0.0	1.000
PF00023	Ank: Ankyrin repeat	0 / 20	11 / 7438	0.0	1.000
PF00025	Arf: ADP-ribosylation factor family	0 / 20	12 / 7438	0.0	1.000
PF00026	Asp: Eukaryotic aspartyl protease	0 / 20	20 / 7438	0.0	1.000
PF00027	cNMP_binding: Cyclic nucleotide-binding domain	0 / 20	7 / 7438	0.0	1.000
PF00043	GST_C: Glutathione S-transferase, C-terminal domain	0 / 20	7 / 7438	0.0	1.000
PF00063	Myosin_head: Myosin head (motor domain)	0 / 20	7 / 7438	0.0	1.000
PF00067	p450: Cytochrome P450	0 / 20	13 / 7438	0.0	1.000
PF00069	Pkinase: Protein kinase domain	0 / 20	174 / 7438	0.0	1.000
PF00071	Ras: Ras family	0 / 20	21 / 7438	0.0	1.000
PF00072	Response_reg: Response regulator receiver domain	0 / 20	5 / 7438	0.0	1.000
PF00076	RRM_1: RNA recognition motif	0 / 20	112 / 7438	0.0	1.000
PF00078	RVT_1: Reverse transcriptase (RNA-dependent DNA polymerase)	0 / 20	5 / 7438	0.0	1.000

Top 25 InterPro terms (whole set, family level)

25 rows shown, ordered by FDR then p-value; 0 have FDR < 0.05 (bold).

Term	Name	k / N cand.	n / M bg	Fold	FDR (BH)
IPR023780	Domain:Chromo domain	2 / 33	9 / 8011	53.946	0.472
IPR000953	Domain:Chromo/chromo shadow domain	2 / 33	10 / 8011	48.552	0.472
IPR036872	Homologous_superfamily:CH domain superfamily	2 / 33	14 / 8011	34.68	0.620
IPR016197	Homologous_superfamily:Chromo-like domain superfamily	2 / 33	16 / 8011	30.345	0.620
IPR007741	Domain:Ribosomal protein/NADH dehydrogenase domain	1 / 33	5 / 8011	48.552	1.000
IPR016098	Homologous_superfamily:Cyclase-associated protein CAP/septum formation inhibitor MinC, C-terminal	1 / 33	6 / 8011	40.46	1.000
IPR000261	Domain:EH domain	1 / 33	7 / 8011	34.68	1.000
IPR023213	Homologous_superfamily:Chloramphenicol acetyltransferase-like domain superfamily	1 / 33	9 / 8011	26.973	1.000
IPR001810	Domain:F-box domain	1 / 33	15 / 8011	16.184	1.000
IPR036047	Homologous_superfamily:F-box-like domain superfamily	1 / 33	17 / 8011	14.28	1.000
IPR002885	Repeat:Pentatricopeptide repeat	1 / 33	18 / 8011	13.487	1.000
IPR011990	Homologous_superfamily:Tetratricopeptide-like helical domain superfamily	2 / 33	168 / 8011	2.89	1.000
IPR032675	Homologous_superfamily:Leucine-rich repeat domain superfamily	1 / 33	44 / 8011	5.517	1.000
IPR036322	Homologous_superfamily:WD40-repeat-containing domain superfamily	2 / 33	220 / 8011	2.207	1.000
IPR019734	Repeat:Tetratricopeptide repeat	1 / 33	65 / 8011	3.735	1.000
IPR015943	Homologous_superfamily:WD40/YVTN repeat-like-containing domain superfamily	2 / 33	244 / 8011	1.99	1.000
IPR036249	Homologous_superfamily:Thioredoxin-like superfamily	1 / 33	77 / 8011	3.153	1.000
IPR036259	Homologous_superfamily:MFS transporter superfamily	1 / 33	116 / 8011	2.093	1.000
IPR000008	Domain:C2 domain	0 / 33	21 / 8011	0.0	1.000
IPR000014	Domain:PAS domain	0 / 33	5 / 8011	0.0	1.000
IPR000073	Domain:Alpha/beta hydrolase fold-1	0 / 33	22 / 8011	0.0	1.000
IPR000086	Domain:NUDIX hydrolase domain	0 / 33	19 / 8011	0.0	1.000
IPR000089	Domain:Biotin/lipoyl attachment	0 / 33	9 / 8011	0.0	1.000
IPR000092	Family:Polyprenyl synthetase-like	0 / 33	5 / 8011	0.0	1.000
IPR000156	Domain:Ran binding domain	0 / 33	8 / 8011	0.0	1.000

Top 15 GO terms (whole set, family level) — secondary, computational evidence (IEA/IBA) included

15 rows shown, ordered by FDR then p-value; 0 have FDR < 0.05 (bold).

Term	Name	k / N cand.	n / M bg	Fold	FDR (BH)	GO evidence
GO:0006338	biological_process:chromatin remodeling	2 / 11	79 / 7257	16.702	1.000	IEA_only
GO:1990071	cellular_component:TRAPPII protein complex	1 / 11	5 / 7257	131.945	1.000	IEA_only
GO:0006297	biological_process:nucleotide-excision repair, DNA gap filling	1 / 11	7 / 7257	94.247	1.000	IEA_only
GO:0006325	biological_process:chromatin organization	2 / 11	106 / 7257	12.448	1.000	IEA_only
GO:0000731	biological_process:DNA synthesis involved in DNA repair	1 / 11	10 / 7257	65.973	1.000	IEA_only
GO:0016255	biological_process:attachment of GPI anchor to protein	1 / 11	10 / 7257	65.973	1.000	IEA_only
GO:0043625	cellular_component:delta DNA polymerase complex	1 / 11	10 / 7257	65.973	1.000	IEA_only
GO:0032502	biological_process:developmental process	1 / 11	11 / 7257	59.975	1.000	IEA_only
GO:0008303	cellular_component:caspase complex	1 / 11	12 / 7257	54.977	1.000	IEA_only
GO:0042765	cellular_component:GPI-anchor transamidase complex	1 / 11	12 / 7257	54.977	1.000	IEA_only
GO:0140535	cellular_component:intracellular protein-containing complex	3 / 11	408 / 7257	4.851	1.000	IEA_only
GO:1990234	cellular_component:transferase complex	3 / 11	430 / 7257	4.603	1.000	IEA_only
GO:0043189	cellular_component:H4/H2A histone acetyltransferase complex	1 / 11	19 / 7257	34.722	1.000	IEA_only
GO:1902562	cellular_component:H4 histone acetyltransferase complex	1 / 11	19 / 7257	34.722	1.000	IEA_only
GO:0030008	cellular_component:TRAPP complex	1 / 11	20 / 7257	32.986	1.000	IEA_only

Actin cytoskeleton controls

Known actin-related families and how many of their proteins pass each filter. Protein ID columns are left out.

control	pfam_ids	desc_regex	IN_universe	IN_in_matrix	IN_pass_ingroup_rule	n_Malaglob	n_Malasymp	n_Malarest	n_Malafurf	n_Malapach	n_Malavesp	n_Malanana	n_Malabras	n_Malajapo	n_Malaarun	n_Mycomayd	n_Ustihord	n_Sporreil	n_Moesaphi	n_Kalmbras	n_Pseufloc	n_Sporgram	n_Testcype	n_Tillindi	n_Tillcari	n_Meirmilt	n_Acaringo	n_Jamirose	n_Micrgluc	n_Tillwash	n_Cerabomb	n_Violpalu	n_Tillanom
Arp2/3 ARPC2 (P34-Arc)	PF04045		10	10	10	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1
Arp2/3 ARPC3 (P21-Arc)	PF04062		10	10	10	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1
Arp2/3 ARPC4	PF05856		9	9	9	0	1	1	1	1	1	1	1	1	1	1	0	1	0	1	1	1	1	1	1	1	1	1	1	1	1	1	1
Arp2/3 ARPC5 (P16-Arc)	PF04699		10	10	10	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1
Arp2/3 ARPC1 (description only)		arp2/3 complex.*(41\|p41\|subunit 1)\|ARPC1	10	10	10	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1
Arp2 / Arp3 (description only)		actin-related protein (2\|3)\b\|\bARP[23]\b	66	66	66	6	8	7	7	6	4	7	7	7	7	7	5	6	6	6	6	7	5	7	7	6	6	6	6	6	6	6	6
WAVE complex NCKAP1	PF09735		0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
WAVE complex CYFIP (FragX_IP)	PF05994		0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
WAVE complex ABI	PF07815\|PF27594		0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
SCAR/WAVE (SCAR_helical)	PF27569		0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
WASP family (WH1)	PF00568		9	9	9	1	1	0	1	1	1	1	1	1	1	1	1	1	0	1	1	1	1	1	1	1	1	1	1	1	1	1	1
WH2 motif (WASP, WAVE, others)	PF02205		16	16	12	1	2	1	3	2	1	1	2	2	1	2	2	2	1	1	2	2	2	1	1	1	2	3	2	1	2	2	1
Formin FH2	PF02181		10	10	10	1	1	1	1	1	1	1	1	1	1	2	2	2	2	2	2	2	2	2	2	2	2	2	2	2	2	2	2
Formin Drf_GBD / Drf_FH3 / Drf_DAD	PF06371\|PF06367\|PF06345		16	16	16	2	2	2	1	2	1	2	1	2	1	2	2	2	2	2	2	2	2	2	2	2	2	2	2	3	2	2	2
Ena/VASP (VASP_tetra)	PF08776		0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Coronin (description only)		coronin	10	10	10	1	1	1	1	1	1	1	1	1	1	1	1	1	1	1	2	1	1	2	2	2	2	1	1	1	2	1	2
Cortactin (HS1_rep)	PF02218		0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Myosin 2 tail (Myosin_tail_1)	PF01576		0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0
Myosin head (all myosins)	PF00063		49	49	49	5	5	5	5	5	5	5	4	5	5	4	4	4	3	4	5	4	4	5	5	4	4	5	5	5	5	5	5

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