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 Rv1850/ureC:

update plot	correlation	link to info on gene
Rv2274c/mazF8	(cc=0.5529)	info on Rv2274c/mazF8
Rv1364c/-	(cc=0.4968)	info on Rv1364c/-
Rv1571/-	(cc=0.4867)	info on Rv1571/-
Rv1920/-	(cc=0.4828)	info on Rv1920/-
Rv2275/-	(cc=0.482)	info on Rv2275/-
Rv2818c/-	(cc=0.4719)	info on Rv2818c/-
Rv1504c/-	(cc=0.464)	info on Rv1504c/-
Rv1551/plsB1	(cc=0.4528)	info on Rv1551/plsB1
Rv0505c/serB1	(cc=0.4448)	info on Rv0505c/serB1
Rv2847c/cysG	(cc=0.4396)	info on Rv2847c/cysG

Correlation of Rv1850/ureC with Rv1551/plsB1

Normalized LFCs for Rv1850/ureC:
(description and provenance of datasets)

	Rv1850/ureC	Rv1551/plsB1
Fe_supp_jason_reseq	-0.583	0.923
low_pH_jason_reseq	-0.756	-0.266
NO_jason_reseq	-0.386	-0.079
B6_jason_reseq	-0.675	-1.362
MHCII_jason_reseq	-0.715	-0.572
Isoniazid02	-0.288	-0.127
Rifampicin4	0.252	-0.799
Ethambutol3	-0.479	-0.186
Meropenem3	0.948	0.818
Vancomycin16	-0.448	-0.164
Rv2680_day32	-0.1	-0.362
H37Rv_KO_MarP	-0.155	-0.041
hypoxia_3wks	0.044	0.467
hypoxia_6wks	0.758	0.501
glycerol	-0.219	0.0
cholesterol	0.323	0.54
AJ	0.439	0.471
Bibs02	-0.842	-0.216
Bibs02c	0.483	0.077
BL6	0.289	1.452
BL6a	0.268	1.027
BXD01	0.853	0.776
BXD010	0.53	0.664
BXD011	0.0	1.181
BXD03	0.302	0.654
BXD04	0.642	1.037
BXD05	-0.293	0.698
BXD06	0.341	0.992
BXD07	0.543	1.126
BXD08	0.193	0.874
BXD09	0.165	1.168
CAST	-0.591	-0.043
CCcont	-0.048	0.858
DS01	0.426	0.368
DS02	0.353	0.474
DS04	0.464	0.846
DS0c	-0.115	0.662
GP01	-0.685	1.403
GP02	-0.577	2.109
GP0c	-0.171	1.501
NOD	-0.667	-0.085
NZO	0.081	-0.114
PWK	-0.583	-0.037
H37Rv_KO_CtpC	0.016	1.161
H37Rv_KO_CtpD	-0.26	0.714
H37Rv_KO_Rv1272	0.688	1.832
H37Rv_KO_SugABC	0.212	1.585
H37Rv_KO_MbtN	1.53	1.287
Trans05	0.576	1.442
macrophage_unactivated	-0.17	0.29
IL1	0.306	0.602
Rapamycin	0.353	1.169
Tcell	0.909	0.85
GMCSF	0.647	0.473
IFNab	-0.248	0.925
IFNg	-0.11	0.786
IFNg_GMCSF1	-0.258	0.487
Rv1432_day32	-0.074	-0.587
Rv1565c_day32	0.366	0.665
secA2_input	-1.104	-0.983
delta_Rv3594	0.682	0.433
delta_Rv3717	0.44	0.371
delta_Rv3811	0.054	-0.284
delta_Rv0954	-0.6	0.366
PonA1	-0.199	0.669
EccD1_KO	0.362	0.043
EspI_KO	-0.054	0.724
PE35_KO	0.895	0.508
PPE68_KO	1.267	0.557
glycerol2	-0.659	-0.147
lignocerate	-0.067	0.035
oleate	-0.445	0.322
phosphatidylcholine	0.09	0.265
acetate	-0.455	0.095
glucAc	-0.297	-0.124
Rv0950ko	-1.96	-0.356
Rv1096ko	-0.742	0.112
Rv3684ko	-0.593	0.121
delta_otsA_trehalose	0.231	0.34