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 Rv2585c/-:

update plot	correlation	link to info on gene
Rv1035c/-	(cc=0.5171)	info on Rv1035c/-
Rv1773c/-	(cc=0.495)	info on Rv1773c/-
Rv0825c/-	(cc=0.4934)	info on Rv0825c/-
Rv1587c/-	(cc=0.4886)	info on Rv1587c/-
Rv0402c/mmpL1	(cc=0.4785)	info on Rv0402c/mmpL1
Rv3509c/ilvX	(cc=0.456)	info on Rv3509c/ilvX
Rv3649/-	(cc=0.4399)	info on Rv3649/-
Rv0646c/lipG	(cc=0.4322)	info on Rv0646c/lipG
Rv3695/-	(cc=0.4307)	info on Rv3695/-
Rv1767/-	(cc=0.4245)	info on Rv1767/-

Correlation of Rv2585c/- with Rv1035c/-

Normalized LFCs for Rv2585c/-:
(description and provenance of datasets)

	Rv2585c/-	Rv1035c/-
Fe_supp_jason_reseq	0.229	0.264
low_pH_jason_reseq	-1.047	-1.723
NO_jason_reseq	-0.798	-0.239
B6_jason_reseq	0.492	-0.285
MHCII_jason_reseq	0.212	-0.151
Isoniazid02	0.028	-1.037
Rifampicin4	0.615	0.227
Ethambutol3	0.924	-0.755
Meropenem3	0.945	2.125
Vancomycin16	0.127	-0.488
Rv2680_day32	0.151	1.306
H37Rv_KO_MarP	-0.913	-0.906
hypoxia_3wks	-0.514	-0.227
hypoxia_6wks	-0.505	-0.558
glycerol	-0.092	0.208
cholesterol	0.846	1.439
AJ	0.519	1.321
Bibs02	0.616	2.307
Bibs02c	0.358	-2.12
BL6	0.356	-1.392
BL6a	0.505	0.91
BXD01	0.008	0.331
BXD010	0.812	1.179
BXD011	0.672	0.045
BXD03	0.487	1.519
BXD04	0.17	-0.299
BXD05	0.746	2.665
BXD06	0.481	0.483
BXD07	0.367	1.003
BXD08	0.305	0.811
BXD09	0.441	0.318
CAST	0.143	1.54
CCcont	-0.558	-1.662
DS01	0.217	-1.177
DS02	0.109	0.841
DS04	0.617	0.936
DS0c	-0.099	-1.211
GP01	0.3	-0.383
GP02	0.091	2.29
GP0c	-0.276	0.134
NOD	0.628	0.231
NZO	0.298	0.722
PWK	1.131	0.136
H37Rv_KO_CtpC	-1.125	-0.186
H37Rv_KO_CtpD	-0.715	-1.409
H37Rv_KO_Rv1272	-0.278	1.477
H37Rv_KO_SugABC	0.296	-0.754
H37Rv_KO_MbtN	0.583	0.608
Trans05	0.476	2.581
macrophage_unactivated	0.316	1.764
IL1	-0.374	0.359
Rapamycin	-0.246	1.715
Tcell	-0.632	0.163
GMCSF	1.17	3.369
IFNab	0.351	0.834
IFNg	0.436	0.198
IFNg_GMCSF1	1.144	2.02
Rv1432_day32	1.643	0.0
Rv1565c_day32	0.433	-0.082
secA2_input	-0.719	-1.832
delta_Rv3594	0.805	1.825
delta_Rv3717	0.75	2.901
delta_Rv3811	0.516	3.004
delta_Rv0954	0.185	1.919
PonA1	0.369	-2.086
EccD1_KO	0.628	-0.96
EspI_KO	0.408	-0.833
PE35_KO	-0.327	-0.181
PPE68_KO	0.067	-1.808
glycerol2	-0.342	-1.115
lignocerate	-0.704	-1.801
oleate	0.312	-0.474
phosphatidylcholine	-0.668	-1.039
acetate	-0.432	-3.125
glucAc	-0.641	-3.31
Rv0950ko	0.576	0.211
Rv1096ko	1.27	1.306
Rv3684ko	1.238	0.861
delta_otsA_trehalose	-0.21	-0.77