TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv0625c/-:

update plot	correlation	link to info on gene
Rv0320/-	(cc=0.4776)	info on Rv0320/-
Rv1675c/cmr	(cc=0.4709)	info on Rv1675c/cmr
Rv0338c/-	(cc=0.4668)	info on Rv0338c/-
Rv0373c/-	(cc=0.464)	info on Rv0373c/-
Rv3649/-	(cc=0.438)	info on Rv3649/-
Rv3154/nuoJ	(cc=0.4239)	info on Rv3154/nuoJ
Rv3371/-	(cc=0.4145)	info on Rv3371/-
Rv0832/PE_PGRS12	(cc=0.4095)	info on Rv0832/PE_PGRS12
Rv0069c/sdaA	(cc=0.4056)	info on Rv0069c/sdaA
Rv2090/-	(cc=0.4044)	info on Rv2090/-

Correlation of Rv0625c/- with Rv0320/-

Normalized LFCs for Rv0625c/-:
(description and provenance of datasets)

	Rv0625c/-	Rv0320/-
Fe_supp_jason_reseq	-0.106	0.911
low_pH_jason_reseq	-1.196	-0.766
NO_jason_reseq	0.034	-0.601
B6_jason_reseq	0.375	0.942
MHCII_jason_reseq	0.778	1.499
Isoniazid02	0.397	-1.008
Rifampicin4	0.769	0.084
Ethambutol3	-0.054	0.677
Meropenem3	0.476	-0.791
Vancomycin16	0.594	-0.578
Rv2680_day32	-0.29	-0.25
H37Rv_KO_MarP	-0.102	0.672
hypoxia_3wks	0.53	0.594
hypoxia_6wks	-0.376	0.844
glycerol	0.563	0.636
cholesterol	3.445	4.951
AJ	0.229	0.608
Bibs02	0.57	0.29
Bibs02c	0.832	0.815
BL6	1.213	-0.906
BL6a	0.604	-0.019
BXD01	0.198	-0.681
BXD010	-0.045	-0.101
BXD011	0.146	0.134
BXD03	0.079	0.445
BXD04	-0.011	0.165
BXD05	0.358	-0.212
BXD06	-0.46	-0.485
BXD07	0.201	-0.264
BXD08	0.142	-0.289
BXD09	0.305	-0.05
CAST	0.581	-0.237
CCcont	0.346	-1.11
DS01	1.075	0.683
DS02	0.774	0.685
DS04	0.915	0.148
DS0c	0.547	0.481
GP01	-1.586	-0.064
GP02	-0.984	0.52
GP0c	-0.823	0.608
NOD	-0.592	-0.109
NZO	0.334	0.25
PWK	0.455	0.155
H37Rv_KO_CtpC	-0.358	-0.379
H37Rv_KO_CtpD	-0.467	0.036
H37Rv_KO_Rv1272	0.979	0.483
H37Rv_KO_SugABC	0.961	-0.291
H37Rv_KO_MbtN	-0.227	0.374
Trans05	1.267	-0.234
macrophage_unactivated	0.505	-0.155
IL1	0.718	0.243
Rapamycin	0.571	0.282
Tcell	0.121	-0.339
GMCSF	1.331	0.269
IFNab	1.146	0.203
IFNg	0.917	-0.131
IFNg_GMCSF1	1.213	0.399
Rv1432_day32	-0.664	-0.402
Rv1565c_day32	-0.377	-0.597
secA2_input	0.017	-0.139
delta_Rv3594	-0.057	-0.824
delta_Rv3717	1.007	-0.522
delta_Rv3811	0.797	-0.062
delta_Rv0954	-0.096	-0.735
PonA1	0.551	-0.778
EccD1_KO	-0.033	0.148
EspI_KO	-0.445	-0.727
PE35_KO	-0.298	-0.487
PPE68_KO	-0.867	-0.461
glycerol2	-0.011	-0.611
lignocerate	0.01	-0.902
oleate	0.852	-0.109
phosphatidylcholine	0.217	-0.394
acetate	-0.17	-0.598
glucAc	-0.559	-0.687
Rv0950ko	0.54	0.57
Rv1096ko	1.149	1.01
Rv3684ko	1.248	0.901
delta_otsA_trehalose	-1.233	0.469