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 Rv3365c/-:

update plot	correlation	link to info on gene
Rv0385/-	(cc=0.6551)	info on Rv0385/-
Rv3271c/-	(cc=0.5616)	info on Rv3271c/-
Rv3194c/-	(cc=0.5528)	info on Rv3194c/-
Rv2696c/-	(cc=0.5237)	info on Rv2696c/-
Rv0774c/-	(cc=0.5138)	info on Rv0774c/-
Rv3191c/-	(cc=0.5124)	info on Rv3191c/-
Rv2352c/PPE38	(cc=0.5117)	info on Rv2352c/PPE38
Rv3156/nuoL	(cc=0.4913)	info on Rv3156/nuoL
Rv0301/vapC2	(cc=0.4892)	info on Rv0301/vapC2
Rv0104/-	(cc=0.4804)	info on Rv0104/-

Correlation of Rv3365c/- with Rv3271c/-

Normalized LFCs for Rv3365c/-:
(description and provenance of datasets)

	Rv3365c/-	Rv3271c/-
Fe_supp_jason_reseq	-0.106	4.567
low_pH_jason_reseq	-1.225	2.652
NO_jason_reseq	-0.656	-0.914
B6_jason_reseq	0.089	0.649
MHCII_jason_reseq	-0.529	0.76
Isoniazid02	-1.793	-5.675
Rifampicin4	-0.341	-0.942
Ethambutol3	-1.694	-2.528
Meropenem3	-0.516	-2.086
Vancomycin16	-0.114	-1.125
Rv2680_day32	0.184	0.754
H37Rv_KO_MarP	-1.158	-3.316
hypoxia_3wks	-0.61	-0.227
hypoxia_6wks	-0.038	-0.503
glycerol	-0.647	0.897
cholesterol	-0.054	2.77
AJ	0.0	-0.845
Bibs02	-0.24	-0.371
Bibs02c	0.203	-0.274
BL6	0.24	3.376
BL6a	0.27	1.033
BXD01	0.326	0.903
BXD010	0.149	-0.26
BXD011	-0.009	0.566
BXD03	0.4	-0.085
BXD04	0.184	0.0
BXD05	0.183	0.08
BXD06	0.256	0.226
BXD07	0.171	0.16
BXD08	0.181	0.079
BXD09	0.209	0.0
CAST	-0.174	0.509
CCcont	0.155	2.583
DS01	0.068	0.274
DS02	0.769	1.508
DS04	0.859	1.577
DS0c	0.481	0.963
GP01	0.523	1.113
GP02	1.221	0.866
GP0c	0.135	2.598
NOD	0.277	1.085
NZO	-0.214	-0.262
PWK	0.352	2.653
H37Rv_KO_CtpC	0.058	4.804
H37Rv_KO_CtpD	0.875	0.215
H37Rv_KO_Rv1272	0.362	1.224
H37Rv_KO_SugABC	0.654	1.271
H37Rv_KO_MbtN	0.401	0.974
Trans05	0.908	2.229
macrophage_unactivated	0.615	0.464
IL1	0.418	3.331
Rapamycin	0.285	2.001
Tcell	0.055	1.678
GMCSF	0.222	1.545
IFNab	1.267	1.871
IFNg	0.738	0.861
IFNg_GMCSF1	0.49	1.618
Rv1432_day32	0.471	1.993
Rv1565c_day32	-0.649	-0.697
secA2_input	-0.21	0.398
delta_Rv3594	0.014	-1.701
delta_Rv3717	0.177	-2.6
delta_Rv3811	-0.217	-1.332
delta_Rv0954	-0.226	-1.498
PonA1	0.335	1.57
EccD1_KO	-0.059	0.572
EspI_KO	-0.402	-1.668
PE35_KO	-0.773	-1.245
PPE68_KO	-0.419	1.053
glycerol2	0.573	-0.68
lignocerate	0.302	0.122
oleate	-0.132	-0.315
phosphatidylcholine	-0.623	-0.487
acetate	1.385	3.893
glucAc	0.873	2.145
Rv0950ko	-0.072	0.0
Rv1096ko	1.179	2.524
Rv3684ko	1.009	1.317
delta_otsA_trehalose	0.304	0.0