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 Rv0829/-:

update plot	correlation	link to info on gene
Rv0349/-	(cc=0.579)	info on Rv0349/-
Rv0346c/ansP2	(cc=0.5548)	info on Rv0346c/ansP2
Rv0571c/-	(cc=0.5481)	info on Rv0571c/-
Rv1043c/-	(cc=0.5391)	info on Rv1043c/-
Rv1103c/mazE3	(cc=0.5233)	info on Rv1103c/mazE3
Rv1538c/ansA	(cc=0.517)	info on Rv1538c/ansA
Rv2082/-	(cc=0.5162)	info on Rv2082/-
Rv1212c/glgA	(cc=0.5082)	info on Rv1212c/glgA
Rv1865c/-	(cc=0.4997)	info on Rv1865c/-
Rv1961/-	(cc=0.4921)	info on Rv1961/-

Correlation of Rv0829/- with Rv0349/-

Normalized LFCs for Rv0829/-:
(description and provenance of datasets)

	Rv0829/-	Rv0349/-
Fe_supp_jason_reseq	-1.781	-1.381
low_pH_jason_reseq	-1.298	-0.726
NO_jason_reseq	0.362	-0.73
B6_jason_reseq	-0.678	-1.532
MHCII_jason_reseq	-0.448	-0.575
Isoniazid02	0.154	0.582
Rifampicin4	-0.328	0.068
Ethambutol3	0.315	1.302
Meropenem3	0.246	0.081
Vancomycin16	-0.801	-0.204
Rv2680_day32	-0.548	-0.262
H37Rv_KO_MarP	0.308	-0.023
hypoxia_3wks	0.251	-0.498
hypoxia_6wks	-0.257	-0.073
glycerol	-2.313	-3.111
cholesterol	-1.522	-0.749
AJ	0.378	-0.427
Bibs02	0.717	-0.225
Bibs02c	-0.349	-0.129
BL6	0.106	0.199
BL6a	-0.066	0.438
BXD01	-0.089	0.176
BXD010	-0.213	0.048
BXD011	-0.465	0.264
BXD03	0.108	0.407
BXD04	-0.966	0.529
BXD05	0.53	0.851
BXD06	-0.119	0.682
BXD07	-0.357	0.209
BXD08	-0.571	0.368
BXD09	-0.372	0.452
CAST	0.093	0.187
CCcont	0.025	0.697
DS01	0.477	0.009
DS02	-0.889	-0.4
DS04	0.999	0.157
DS0c	-0.2	-0.473
GP01	-0.368	-0.398
GP02	0.967	0.13
GP0c	-0.569	0.332
NOD	-0.441	-1.085
NZO	0.564	-0.954
PWK	0.939	-0.121
H37Rv_KO_CtpC	-0.115	0.354
H37Rv_KO_CtpD	-0.24	0.562
H37Rv_KO_Rv1272	-0.338	0.375
H37Rv_KO_SugABC	0.738	0.666
H37Rv_KO_MbtN	-0.499	-0.333
Trans05	-0.074	-0.046
macrophage_unactivated	-0.243	0.325
IL1	-0.217	0.611
Rapamycin	-0.589	-0.328
Tcell	0.134	-0.293
GMCSF	0.304	2.025
IFNab	-0.354	0.13
IFNg	-0.051	0.155
IFNg_GMCSF1	0.449	0.229
Rv1432_day32	1.229	-0.756
Rv1565c_day32	0.0	0.545
secA2_input	-0.089	-1.291
delta_Rv3594	1.649	1.433
delta_Rv3717	1.836	0.477
delta_Rv3811	2.104	1.206
delta_Rv0954	1.512	1.636
PonA1	0.794	0.751
EccD1_KO	0.411	0.385
EspI_KO	0.633	0.068
PE35_KO	0.12	-1.14
PPE68_KO	0.339	-0.598
glycerol2	0.933	1.92
lignocerate	1.142	1.891
oleate	0.216	0.213
phosphatidylcholine	1.0	1.55
acetate	0.673	2.041
glucAc	1.027	1.087
Rv0950ko	0.16	0.609
Rv1096ko	1.948	0.573
Rv3684ko	0.079	0.891
delta_otsA_trehalose	-0.385	-0.151