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 Rv0646c/lipG

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

	Rv2585c/-	Rv0646c/lipG
Fe_supp_jason_reseq	0.229	0.205
low_pH_jason_reseq	-1.047	-1.519
NO_jason_reseq	-0.798	-0.202
B6_jason_reseq	0.492	0.095
MHCII_jason_reseq	0.212	-0.193
Isoniazid02	0.028	-0.249
Rifampicin4	0.615	-1.029
Ethambutol3	0.924	1.443
Meropenem3	0.945	1.242
Vancomycin16	0.127	-0.236
Rv2680_day32	0.151	1.399
H37Rv_KO_MarP	-0.913	-0.82
hypoxia_3wks	-0.514	-1.974
hypoxia_6wks	-0.505	1.125
glycerol	-0.092	1.423
cholesterol	0.846	1.977
AJ	0.519	0.508
Bibs02	0.616	0.779
Bibs02c	0.358	0.185
BL6	0.356	-0.62
BL6a	0.505	-0.026
BXD01	0.008	-0.223
BXD010	0.812	-0.189
BXD011	0.672	0.305
BXD03	0.487	-0.885
BXD04	0.17	-0.639
BXD05	0.746	-0.189
BXD06	0.481	-0.1
BXD07	0.367	-0.084
BXD08	0.305	-0.324
BXD09	0.441	0.009
CAST	0.143	0.792
CCcont	-0.558	-1.97
DS01	0.217	1.449
DS02	0.109	1.459
DS04	0.617	-0.104
DS0c	-0.099	0.652
GP01	0.3	2.3
GP02	0.091	1.714
GP0c	-0.276	1.021
NOD	0.628	0.652
NZO	0.298	1.001
PWK	1.131	1.594
H37Rv_KO_CtpC	-1.125	1.938
H37Rv_KO_CtpD	-0.715	-0.417
H37Rv_KO_Rv1272	-0.278	0.753
H37Rv_KO_SugABC	0.296	0.978
H37Rv_KO_MbtN	0.583	2.536
Trans05	0.476	0.718
macrophage_unactivated	0.316	-0.78
IL1	-0.374	0.0
Rapamycin	-0.246	0.288
Tcell	-0.632	0.547
GMCSF	1.17	0.248
IFNab	0.351	0.638
IFNg	0.436	0.291
IFNg_GMCSF1	1.144	1.122
Rv1432_day32	1.643	2.167
Rv1565c_day32	0.433	1.041
secA2_input	-0.719	-0.085
delta_Rv3594	0.805	0.271
delta_Rv3717	0.75	0.388
delta_Rv3811	0.516	0.634
delta_Rv0954	0.185	-0.707
PonA1	0.369	-1.421
EccD1_KO	0.628	0.388
EspI_KO	0.408	-0.539
PE35_KO	-0.327	-0.688
PPE68_KO	0.067	-0.832
glycerol2	-0.342	-1.921
lignocerate	-0.704	-1.497
oleate	0.312	-0.871
phosphatidylcholine	-0.668	-0.702
acetate	-0.432	-0.199
glucAc	-0.641	-1.417
Rv0950ko	0.576	1.402
Rv1096ko	1.27	1.686
Rv3684ko	1.238	1.385
delta_otsA_trehalose	-0.21	-0.1